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With 2.7.6+ works fine.
Python 2.7.6+ (2.7:c28e07377b03, Jan 22 2014, 12:56:14) 
[GCC 4.7.3] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> from zipfile import ZipFile
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>>> 
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>>> with ZipFile("dbNSFP2.0.zip", "r") as zf:
... with zf.open("dbNSFP2.0_variant.chr20", "U") as f:
... count = 0
... for line in f:
... count += 1
... 
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>>> print count
2161277
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I tested it with Python 3.3 and works fine too.